bionic (1) hmm2fetch.1.gz

Provided by: hmmer2_2.3.2+dfsg-5_amd64 bug

NAME
       hmm2fetch - retrieve an HMM from an HMM database


SYNOPSIS
       hmm2fetch [options] database name


DESCRIPTION
       hmm2fetch  is  a  small  utility  that  retrieves  an  HMM called name from a HMMER model database called
       database.  in a new format, and prints that model to standard output.  For example,  hmm2fetch  Pfam  rrm
       retrieves  the RRM (RNA recognition motif) model from Pfam, if the environment variable HMMERDB is set to
       the location of the Pfam database.  The retrieved HMM file is written in HMMER 2 ASCII format.

       The database must have an associated GSI  index  file.   To  index  an  HMM  database,  use  the  program
       hmm2index.


OPTIONS
       -h     Print brief help; includes version number and summary of all options, including expert options.

       -n     Interpret  name  as an HMM number instead of a name. Numbering starts at 0.  For example, to fetch
              the first HMM from an HMM database called foo, you would do hmm2fetch -n 0 foo.


SEE ALSO
       Master man page, with full list of and guide to the individual man pages: see hmmer2(1).

       For          complete           documentation,           see           the           user           guide
       (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf);    or   see   the   HMMER   web   page,
       http://hmmer.janelia.org/.


       Copyright (C) 1992-2003 HHMI/Washington University School of Medicine.
       Freely distributed under the GNU General Public License (GPL).
       See the file COPYING in your distribution for details on redistribution conditions.


AUTHOR
       Sean Eddy
       HHMI/Dept. of Genetics
       Washington Univ. School of Medicine
       4566 Scott Ave.
       St Louis, MO 63110 USA
       http://www.genetics.wustl.edu/eddy/